AutismKB 2.0

Annotation Detail for SEMA3C


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Basic Information Top
Gene Symbol:SEMA3C ( SEMAE,SemE )
Gene Full Name: sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3C
Band: 7q21.11
Quick LinksEntrez ID:10512; OMIM: 602645; Uniprot ID:SEM3C_HUMAN; ENSEMBL ID: ENSG00000075223; HGNC ID: 10725
Relate to Another Database: SFARIGene; denovo-db
Unigene EST Top
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
embryoid body13 / 70761183
blastocyst0 / 623190 
fetus46 / 56401281
neonate2 / 3109764
infant0 / 236200 
juvenile2 / 5555635
adult102 / 193912152
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adrenal tumor4 / 12794312
bladder carcinoma2 / 17475114
breast (mammary gland) tumor26 / 94178276
cervical tumor0 / 343660 
chondrosarcoma2 / 8282324
colorectal tumor0 / 1142460 
esophageal tumor2 / 17290115
gastrointestinal tumor6 / 11936950
germ cell tumor39 / 263845147
glioma13 / 106883121
head and neck tumor6 / 13630244
kidney tumor3 / 6895943
leukemia1 / 9584210
liver tumor6 / 9635962
lung tumor0 / 1031270 
lymphoma0 / 717550 
non-neoplasia7 / 9725071
normal146 / 336030743
ovarian tumor0 / 766820 
pancreatic tumor8 / 10461676
primitive neuroectodermal tumor of the CNS1 / 1256807
prostate cancer3 / 10268029
retinoblastoma0 / 463560 
skin tumor4 / 12494932
soft tissue/muscle tissue tumor5 / 12519139
uterine tumor6 / 9025766
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adipose tissue1 / 1310676
adrenal gland5 / 33197150
ascites0 / 400150 
bladder9 / 29757302
blood1 / 1234788
bone5 / 7165569
bone marrow0 / 488010 
brain78 / 110098970
cervix0 / 481710 
connective tissue15 / 149255100
ear3 / 16212185
embryonic tissue14 / 21572264
esophagus2 / 2020998
eye8 / 21105437
heart3 / 8962633
intestine6 / 23447225
kidney7 / 21177733
larynx0 / 241450 
liver8 / 20774338
lung14 / 33697441
lymph0 / 442700 
lymph node0 / 916100 
mammary gland33 / 153271215
mouth4 / 6705259
muscle7 / 10771564
nerve2 / 15768126
ovary0 / 1020510 
pancreas8 / 21481237
parathyroid0 / 205390 
pharynx0 / 413280 
pituitary gland0 / 165850 
placenta0 / 2808250 
prostate8 / 18934542
salivary gland0 / 201550 
skin9 / 21057442
spleen1 / 5395218
stomach1 / 9661910
testis39 / 330442118
thymus0 / 811310 
thyroid2 / 4747342
tonsil0 / 169990 
trachea15 / 52413286
umbilical cord0 / 136800 
uterus22 / 23287894
vascular6 / 51780115
Microarray in BioGPS Top
Select probe  
  • Microarray Platform: GeneAtlas U133A, gcrma
  • Affymatrix Probe ID: 203789_s_at
Cell line Expression level Expression bar
721_B_lymphoblasts9.25
Adipocyte119.35
AdrenalCortex12.15
Adrenalgland9.1
Amygdala54.15
Appendix116.7
AtrioventricularNode12
BDCA4+_DentriticCells84.75
Bonemarrow8.85
BronchialEpithelialCells892.05
CD105+_Endothelial9.2
CD14+_Monocytes20.85
CD19+_BCells(neg._sel.)9.15
CD33+_Myeloid60.6
CD34+29.7
CD4+_Tcells8.55
CD56+_NKCells10
CD71+_EarlyErythroid8.3
CD8+_Tcells7.55
CardiacMyocytes314.65
Caudatenucleus8.25
Cerebellum7.35
CerebellumPeduncles12.35
CiliaryGanglion30.9
CingulateCortex10.3
Colorectaladenocarcinoma8.75
DorsalRootGanglion10.35
FetalThyroid10.6
Fetalbrain419
Fetalliver8.55
Fetallung77.9
GlobusPallidus8
Heart13.55
Hypothalamus32.2
Kidney7.3
Leukemia_chronicMyelogenousK-5628.1
Leukemia_promyelocytic-HL-607.8
Leukemialymphoblastic(MOLT-4)6.6
Liver12.3
Lung9.95
Lymphnode9.5
Lymphoma_burkitts(Daudi)11.7
Lymphoma_burkitts(Raji)12.65
MedullaOblongata9.7
OccipitalLobe12.35
OlfactoryBulb7.5
Ovary6.85
Pancreas7.8
PancreaticIslet9.45
ParietalLobe11.65
Pituitary23.3
Placenta8.35
Pons10.75
PrefrontalCortex14.6
Prostate151.45
Salivarygland22.9
SkeletalMuscle13.55
Skin12.05
SmoothMuscle501
Spinalcord18.8
SubthalamicNucleus8.65
SuperiorCervicalGanglion18.65
TemporalLobe8.8
Testis8.6
TestisGermCell149.3
TestisIntersitial14
TestisLeydigCell31.5
TestisSeminiferousTubule8.35
Thalamus12.05
Thymus6.75
Thyroid12.4
Tongue13.9
Tonsil8.6
Trachea63.95
TrigeminalGanglion13.35
Uterus131.85
UterusCorpus130.25
WholeBlood10.2
Wholebrain8.5
colon176.75
pineal_day11.9
pineal_night15.3
retina157.725
small_intestine17.6
Allen Brain Atlas Top
Human Whole Brain Microarrayview in Allen Brain Atlas
  • Probe id     Donor id      
  • Probe name: CUST_563_PI416408490
  • Donor H0351.2001
  • Sex: Male     Age: 24 years     Race/Ethnicity: African American     Handedness: Left
  • Tissue Receipt Date: 7/29/2009     Serology: Pass      Tissue pH :6.72     Additional Medical Information :History of asthma
  • Postmortem Interval: 23 hours (estimated time of death to time that tissue is frozen)
  • Toxicology: Positive for atropine and caffeine, at levels usually not toxicologically significant
Tissue Expression(mean ± stddev) Expression Bar
Amygdala4.08 ± 1.05
Basal Forebrain5.11 ± 0.76
Basal Part of Pons5.38 ± 0.36
Cerebellar Cortex3.82 ± 0.85
Cerebellar Nuclei5.47 ± 0.68
Claustrum3.39 ± 0.73
Epithalamus3.65 ± 0.81
Frontal Lobe4.62 ± 0.75
Globus Pallidus5.84 ± 0.66
Hypothalamus4.89 ± 0.89
Insula4.39 ± 0.65
Limbic Lobe4.27 ± 1.12
Mesencephalon4.32 ± 0.93
Myelencephalon4.23 ± 0.85
Occipital Lobe4.09 ± 0.59
Parietal Lobe4.09 ± 0.94
Pontine Tegmentum4.48 ± 0.71
Striatum3.79 ± 0.87
Subthalamus4.23 ± 0.68
Temporal Lobe3.95 ± 0.84
Thalamus4.77 ± 0.7
White Matter6.41 ± 0.28
Mouse Brain ISH
Gene Symbol Brain Structure ID Brain Structure Name Express Desity/Level (Meatured by ISH) Express Bar
Sema3cCBCerebellum9.86
9.45
Sema3cCTXCerebral cortex22.12
17.39
Sema3cHIPHippocampal region28.8
27.04
Sema3cHPFHippocampal formation27.84
25.73
Sema3cHYHypothalamus13.51
11.58
Sema3cLSXLateral septal complex9.65
7.49
Sema3cMBMidbrain15.22
12.62
Sema3cMYMedulla18.9
19.91
Sema3cOLFOlfactory bulb44.62
35.44
Sema3cPPons15.17
14.17
Sema3cPALPallidum32.98
32.6
Sema3cRHPRetrohippocampal region25.74
23.32
Sema3csAMYStriatum-like amygdalar nuclei23.71
19.29
Sema3cSTRStriatum9.93
7
Sema3cSTRdStriatum dorsal region7.49
4.81
Sema3cSTRvStriatum ventral region10.1
6.52
Sema3cTHThalamus10.71
7.25
Peptide Top
Peptide Name Peptide Lengh Peptide Start Peptide End Peptide Sequence Source
PAp00096968 20 632 651 SVQGSDQGLYHCIATENSFK Peptide Atlas

Simple Query:


  (e.g. CHD8)

Syndromic Genes

Non-syndromic Genes

AutismKB Statistics

  • Studies: 1,036
  • Genes: 1,379
  • CNVs/SVs: 5,420
  • SNVs/Indels: 11,669
  • de novo Mutations: 5,669
  • Mosaics: 789
  • Linkage Regions: 172
  • Paper Collected: 6/30/2018
  • Last Update: 8/26/2018


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